: Molecular subtypes compared by gene sequence mutations.

Percentages are the proportion of tumors having a mutation within a subtype, e.g. 37% of Bronchioid tumors have an EGFR mutation in the discovery cohorts. Corresponding numbers of patients with gene mutations are presented in Table S5. The association of subtype and mutations in the discovery cohorts were compared by Fisher's exact tests on three subtypes (two-sided P′). For significantly associated genes (P′<0.10), the subtype with the greatest mutation frequency was identified and is listed. In the validation cohort, Fisher's exact tests evaluated the null hypothesis that each gene's subtype with greatest mutation frequency had not greater mutation frequency than the other subtypes (one-sided P″). Benjamini-Hochberg false discovery rates (q-values) are also displayed for the discovery and validation cohort.